SUPERFAMILY 1.75 HMM library and genome assignments server


BRCA2 helical domain superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   All alpha proteins [ 46456] (284)
Fold:   BRCA2 helical domain [ 81871]
Superfamily:   BRCA2 helical domain [ 81872]
Families:   BRCA2 helical domain [ 81873]


Superfamily statistics
Genomes (222) Uniprot 2014_06 PDB chains (SCOP 1.75)
Domains 274 393 3
Proteins 269 392 3


Functional annotation
General category Other
Detailed category Unknown function

Document:
Function annotation of SCOP domain superfamilies

Gene Ontology (high-coverage)

(show details)
GO term FDR (all) SDFO level Annotation (direct or inherited)
Biological Process (BP) cellular aromatic compound metabolic process 1.299e-07 Least Informative Direct
Biological Process (BP) nitrogen compound metabolic process 6.045e-07 Least Informative Direct
Biological Process (BP) regulation of metabolic process 0.0003506 Least Informative Direct
Biological Process (BP) cellular macromolecule metabolic process 2.612e-06 Least Informative Direct
Biological Process (BP) heterocycle metabolic process 1.109e-07 Least Informative Direct
Biological Process (BP) response to stimulus 4.693e-05 Least Informative Direct
Biological Process (BP) cellular component organization or biogenesis 0.0002699 Least Informative Direct
Biological Process (BP) organic cyclic compound metabolic process 2.499e-07 Least Informative Direct
Biological Process (BP) multicellular organismal process 0.001989 Least Informative Inherited
Biological Process (BP) developmental process 0.001058 Least Informative Inherited
Biological Process (BP) regulation of cellular process 0.006169 Least Informative Inherited
Biological Process (BP) single-organism cellular process 0.02467 Least Informative Inherited
Biological Process (BP) reproduction 9.333e-07 Moderately Informative Direct
Biological Process (BP) organelle organization 0.0006134 Moderately Informative Direct
Biological Process (BP) regulation of biosynthetic process 1.95e-05 Moderately Informative Direct
Biological Process (BP) regulation of nucleobase-containing compound metabolic process 2.43e-05 Moderately Informative Direct
Biological Process (BP) cellular response to stress 1.051e-10 Moderately Informative Direct
Biological Process (BP) developmental process involved in reproduction 9.348e-05 Informative Direct
Biological Process (BP) DNA metabolic process 1.533e-12 Informative Direct
Biological Process (BP) response to DNA damage stimulus 1.075e-13 Informative Direct
Biological Process (BP) cell cycle process 2.016e-08 Informative Direct
Biological Process (BP) single organism reproductive process 3.166e-05 Informative Direct
Biological Process (BP) cellular process involved in reproduction 6.903e-06 Informative Direct
Biological Process (BP) reproductive system development 2.747e-05 Informative Direct
Biological Process (BP) sexual reproduction 0.01511 Informative Inherited
Biological Process (BP) multicellular organismal reproductive process 0.03814 Informative Inherited
Biological Process (BP) double-strand break repair 0 Highly Informative Direct
Biological Process (BP) DNA recombination 0.0005767 Highly Informative Direct
Biological Process (BP) meiosis 0.0002089 Highly Informative Direct
Biological Process (BP) spermatogenesis 1.273e-09 Highly Informative Direct
Molecular Function (MF) binding 0.000367 Least Informative Direct

Document: GO annotation of SCOP domains

InterPro annotation
Cross references IPR015252 SSF81872 Protein matches
Abstract

This domain adopts a helical structure, consisting of a four-helix cluster core (alpha 1, alpha 8, alpha 9, alpha 10) and two successive beta-hairpins (beta 1 to beta 4). An approximately 50-amino acid segment that contains four short helices (alpha 2 to alpha 4), meanders around the surface of the core structure. In BRCA2, the alpha 9 and alpha 10 helices pack with BRCA-2_OB1 through van der Waals contacts involving hydrophobic and aromatic residues, and also through side-chain and backbone hydrogen bonds. This domain binds the 70-amino acid DSS1 (deleted in split-hand/split foot syndrome) protein, which was originally identified as one of three genes that map to a 1.5-Mb locus deleted in an inherited developmental malformation syndrome [PubMed12228710].


InterPro database


PDBeMotif information about ligands, sequence and structure motifs
Cross references PDB entries
Ligand binding statistics
Nucleic-acid binding statistics
Occurrence of secondary structure elements
Occurrence of small 3D structural motifs

PDBeMotif resource

Jump to [ Top of page · SCOP classification · InterPro annotation · PDBeMotif links · Functional annotation · Gene Ontology (high-coverage) ]

Internal database links

Browse genome assignments for this superfamily. The SUPERFAMILY hidden Markov model library has been used to carry out SCOP domain assignments to all genomes at the superfamily level.


Alignments of sequences to 2 models in this superfamily are available by clicking on the 'Alignments' icon above. PDB sequences less than 40% identical are shown by default, but any other sequence(s) may be aligned. Select PDB sequences, genome sequences, or paste in or upload your own sequences.


Browse and view proteins in genomes which have different domain combinations including a BRCA2 helical domain domain.


Examine the distribution of domain superfamilies, or families, across the major taxonomic kingdoms or genomes within a kingdom. This gives an immediate impression of how superfamilies, or families, are restricted to certain kingdoms of life.


Explore domain occurrence network where nodes represent genomes and edges are domain architectures (shared between genomes) containing the superfamily of interest.

There are 2 hidden Markov models representing the BRCA2 helical domain superfamily. Information on how the models are built, and plots showing hydrophobicity, match emmission probabilities and insertion/deletion probabilities can be inspected.


Jump to [ Top of page · SCOP classification · InterPro annotation · PDBeMotif links · Functional annotation · Gene Ontology (high-coverage) · Internal database links ]